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Martins Da Ponte, R. (author), Gaio, N. (author), van Zeijl, H.W. (author), Vollebregt, S. (author), Dijkstra, Paul (author), Dekker, R. (author), Serdijn, W.A. (author), Giagka, Vasiliki (author)
One of the many applications of organ-on-a-chip (OOC) technology is the study of biological processes in human induced pluripotent stem cells (iPSCs) during pharmacological drug screening. It is of paramount importance to construct OOCs equipped with highly compact in situ sensors that can accurately monitor, in real time, the extracellular...
journal article 2021
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Mouter, N. (author), Koster, Paul (author), Dekker, Thijs (author)
Participatory Value Evaluation (PVE) is a new method to assess the desirability of government projects. In a PVE, individuals select their preferred portfolio of government projects given a constrained public budget. Individuals’ preferences for (the impacts of) government projects can be determined based on these choices. The obtained...
journal article 2021
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Van Riessen, Bart (author), Mulder, Judith (author), Negenborn, R.R. (author), Dekker, Rommert (author)
The cargo fare class mix (CFCM) problem aims to find the optimal fare class mix for a given intermodal transportation network based on known client demands. It is based on a revenue management problem for aviation passengers, the fare class mix problem, but considering intermodal cargo transportation, two major differences apply. Firstly, the...
journal article 2020
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Waafi, Affan K. (author), Gaio, N. (author), Quiros Solano, W.F. (author), Dijkstra, Paul (author), Sarro, P.M. (author), Dekker, R. (author)
We present the first Organ-on-Chip equipped with a low-impedance Poly(3,4-ethylenedioxythiophene) polystyrene sulfonate (PEDOT:PSS) MicroElectrode Array (MEA). The novel device allows simultaneous mechanical stimulation with a stretchable PDMS membrane and electrical monitoring via the PEDOT:PSS MEA of multiple in vitro cell cultures. The...
journal article 2020
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Last, M.G.F. (author), Deshpande, S.R. (author), Dekker, C. (author)
Membraneless organelles formed by liquid-liquid phase separation are dynamic structures that are employed by cells to spatiotemporally regulate their interior. Indeed, complex coacervation-based phase separation is involved in a multitude of biological tasks ranging from photosynthesis to cell division to chromatin organization, and more....
journal article 2020
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Størkersen, Kristine (author), Thorvaldsen, Trine (author), Kongsvik, Trond (author), Dekker, S.W.A. (author)
Over the past decades, government safety management regulation has been driven by deregulation, simplification and organization-level regimes of inspection. So-called functional rule-making requires organizations to implement safety management systems appropriate for their operations. The paradox that seems to have arisen is that...
journal article 2020
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Kaczmarczyk, A.P. (author), Meng, He (author), Ordu, O. (author), Noort, John van (author), Dekker, N.H. (author)
Torsional stress generated during DNA replication and transcription has been suggested to facilitate nucleosome unwrapping and thereby the progression of polymerases. However, the propagation of twist in condensed chromatin remains yet unresolved. Here, we measure how force and torque impact chromatin fibers with a nucleosome repeat length of...
journal article 2020
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Kim, E. (author), Kerssemakers, J.W.J. (author), Shaltiel, Indra A. (author), Haering, Christian H. (author), Dekker, C. (author)
Condensin, a key component of the structure maintenance of chromosome (SMC) protein complexes, has recently been shown to be a motor that extrudes loops of DNA<sup>1</sup>. It remains unclear, however, how condensin complexes work together to collectively package DNA into chromosomes. Here we use time-lapse single-molecule visualization to...
journal article 2020
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Smith, Kathleen Beth (author), Wehrli, Monika (author), Japaridze, A. (author), Assenza, Salvatore (author), Dekker, C. (author), Mezzenga, Raffaele (author)
The fine interplay between the simultaneous stretching and confinement of amyloid fibrils is probed by combining a microcapillary setup with atomic force microscopy. Single-molecule statistics reveal how the stretching of fibrils changed from force to confinement dominated at different length scales. System order, however, is solely ruled by...
journal article 2020
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Japaridze, A. (author), Gogou, C. (author), Kerssemakers, J.W.J. (author), Nguyen, Huyen My (author), Dekker, C. (author)
The replication and transfer of genomic material from a cell to its progeny are vital processes in all living systems. Here we visualize the process of chromosome replication in widened E. coli cells. Monitoring the replication of single chromosomes yields clear examples of replication bubbles that reveal that the two replisomes move...
journal article 2020
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Caneva, S. (author), Hermans, Matthijs (author), Lee, M. (author), García-Fuente, Amador (author), Watanabe, Kenji (author), Taniguchi, Takashi (author), Dekker, C. (author), Ferrer, Jaime (author), van der Zant, H.S.J. (author), Gehring, P. (author)
Graphene quantum dots (QDs) are intensively studied as platforms for the next generation of quantum electronic devices. Fine tuning of the transport properties in monolayer graphene QDs, in particular with respect to the independent modulation of the tunnel barrier transparencies, remains challenging and is typically addressed using...
journal article 2020
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Bengtson, M.L. (author), Bharadwaj, M. (author), ten Bosch, A.P. (author), Nyakundi, Hellen (author), Matoke-Muhia, Damaris (author), Dekker, C. (author), Diehl, J.C. (author)
The rapid growth of point-of-care (POC) diagnostic tests necessitates a clear vision of when, where, and why a new POC diagnostic test needs to be developed and how it can be used in a way that matches a local health care context. Here, we present an innovative approach toward developing a concept target product profile (CTPP), which is a new...
journal article 2020
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Caro Ortiz, S.A. (author), Zuidema, Erik (author), Dekker, Desmond (author), Rigutto, Marcello (author), Dubbeldam, D. (author), Vlugt, T.J.H. (author)
Computer simulations of adsorption of aromatics in zeolites are typically performed using rigid zeolite frameworks. However, adsorption isotherms for aromatics are very sensitive to small differences in the atomic positions of the zeolite (Chem. Phys. Lett., 1999, 308, 155-159). This article studies the effect of framework flexibility on the...
journal article 2020
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Tang, Y. (author), Ha, S. (author), Begou, Thomas (author), Lumeau, Julien (author), Urbach, Paul (author), Dekker, N.H. (author), Adam, A.J.L. (author)
The ability to apply force and torque directly to micro- and nanoscale particles in optical traps has a wide range of applications. While full control of both force and torque in three dimensions has been realized using top-down fabrication of rod-shaped particles composed of birefringent crystalline materials, widespread usage of such...
journal article 2020
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de Wit, S.I. (author), Dekker, Andre (author)
In the contemporary metropolitan landscape of Rotterdam, the open landscape spaces that once surrounded the city have been reduced to components in a hybrid field. When the polders were still expansive, with an omnipresent horizon, and big skies, they were depicted extensively by the Dutch landscape painter Henk Chabot (1894-1949). Chabot is the...
journal article 2020
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Reddy, N. (author), Farah, H. (author), Huang, Yilin (author), Dekker, Thijs (author), van Arem, B. (author)
There is a pressing need for road authorities to take a proactive role in the deployment of automated vehicles on the existing road network. This requires a comprehensive understanding of the driving environment characteristics that affect the performance of automated vehicles. In this context, a field test with Lane Departure Warning (LDW) and...
journal article 2020
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van der Meij, Leander (author), Demetriou, A.M. (author), Tulin, Marina (author), Méndez, Ileana (author), Dekker, Peter (author), Pronk, Tila (author)
There is evidence that testosterone and cortisol levels are related to the attraction of a romantic partner; testosterone levels relate to a wide range of sexual behaviors and cortisol is a crucial component in the response to stress. To investigate this, we conducted a speed-dating study among heterosexual singles. We measured salivary...
journal article 2019
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Wu, Fabai (author), Japaridze, A. (author), Zheng, X.Z. (author), Wiktor, J.M. (author), Kerssemakers, J.W.J. (author), Dekker, C. (author)
Although the physical properties of chromosomes, including their morphology, mechanics, and dynamics are crucial for their biological function, many basic questions remain unresolved. Here we directly image the circular chromosome in live E. coli with a broadened cell shape. We find that it exhibits a torus topology with, on average, a lower...
journal article 2019
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Dekker, R. (author), van der Meer, F.P. (author), Maljaars, J. (author), Sluys, Lambertus J. (author)
Structures are subjected to cyclic loads that can vary in direction and magnitude, causing constant amplitude mode I simulations to be too simplistic. This study presents a new approach for fatigue crack propagation in ductile materials that can capture mixed-mode loading and overloading. The extended finite element method is used to deal with...
journal article 2019
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Al Nahas, K. (author), Cama, J. (author), Schaich, M. (author), Hammond, K. (author), Deshpande, S. (author), Dekker, C. (author), Ryadnov, M. G. (author), Keyser, U. F. (author)
The spread of bacterial resistance against conventional antibiotics generates a great need for the discovery of novel antimicrobials. Polypeptide antibiotics constitute a promising class of antimicrobial agents that favour attack on bacterial membranes. However, efficient measurement platforms for evaluating their mechanisms of action in a...
journal article 2019
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